Single cell type - IGF1 - The Human Protein Atlas

GENERAL INFORMATIONⁱ General description of the gene and the encoded protein(s) using information from HGNC and Ensembl, as well as predictions made by the Human Protein Atlas project.
Gene nameⁱ Official gene symbol, which is typically a short form of the gene name, according to HGNC.	IGF1
Gene descriptionⁱ Full gene name according to HGNC.	Insulin like growth factor 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes Human disease related genes Plasma proteins RAS pathway related proteins
Predicted locationⁱ All transcripts of all genes have been analyzed regarding the location(s) of corresponding protein based on prediction methods for signal peptides and transmembrane regions. Genes with at least one transcript predicted to encode a secreted protein, according to prediction methods or to UniProt location data, have been further annotated and classified with the aim to determine if the corresponding protein(s) are secreted or actually retained in intracellular locations or membrane-attached. Remaining genes, with no transcript predicted to encode a secreted protein, will be assigned the prediction-based location(s). The annotated location overrules the predicted location, so that a gene encoding a predicted secreted protein that has been annotated as intracellular will have intracellular as the final location. Read more	Secreted
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	6

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression and protein localization based on data generated within the Human Protein Atlas project.
Single cell type expression clusterⁱ The RNA data was used to cluster genes according to their expression across single cell types. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity. Read more	Stromal cells - Cell proliferation (mainly)
Single cell type specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell types based on scRNA-seq data from normal tissues. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. Read more	Group enriched (Endometrial stromal cells, Leydig cells)
Immune cell specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. Read more	Immune cell enhanced (naive B-cell)
Immune cell distributionⁱ The RNA distribution category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: detected in all, detected in many, detected in some, detected in single and not detected. Read more	Detected in single
Cell line specificityⁱ RNA specificity category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into six different categories (enriched, group enriched, enhanced, low specificity and not detected) according to their RNA expression levels across the panel of cell lines. Read more	Cell line enhanced (ASC diff, HDLM-2, K-562, Karpas-707, U-266/70)
Cell line distributionⁱ RNA distribution category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into five different categories (detected in all, detected in many, detected in some, detected in single and not detected) according to their pattern of detected RNA expression across the panel of cell lines. Read more	Detected in some
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); a Human Protein Atlas antibody- or RNA based score (HPA evidence); and evidence based on PeptideAtlas (MS evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable. Read more	Evidence at protein level
Extracellular locationⁱ A possible secretion of the protein was predicted based on N-terminal signal sequence (signal peptide) predictions and transmembrane region predictions, and subsequently annotated for its local or systemic secretion based on literature, function, and protein and RNA expression data. Read more	Protein predicted to be secreted

SINGLE CELL TYPESⁱ A summary of single cell RNA (nTPM) from all single cell types. Color-coding is based on cell type groups, each consisting of cell types with functional features in common.
Single cell types Group Expression Alphabetical RNA single cell type specificity: Group enriched (Endometrial stromal cells, Leydig cells)

SINGLE CELL TISSUES OVERVIEWⁱ An overview of all tissues where single cell type expression has been analyzed. Each tissue name and corresponding UMAP plot is clickable and redirects to the selected tissue.
Adipose tissue Bone marrow Brain Breast Bronchus Colon Endometrium Esophagus Eye Heart muscle Kidney Liver Lung Lymph node Ovary Pancreas Placenta Prostate Rectum Skeletal muscle Skin Small intestine Spleen Stomach Testis

EXPRESSION CLUSTERING & CORRELATIONⁱ

IGF1 is part of cluster 36 Stromal cells - Cell proliferation with confidenceⁱ 1
96 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell type RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data. Read more	Clusterⁱ ID of the expression cluster of the neighboring gene. Read more
NID1	Nidogen 1	0.8515	36
HOXA11	Homeobox A11	0.8387	36
WNT5A	Wnt family member 5A	0.7852	36
ADRA2C	Adrenoceptor alpha 2C	0.7845	36
APCDD1	APC down-regulated 1	0.7844	36
GALNT17	Polypeptide N-acetylgalactosaminyltransferase 17	0.7672	36
SHISAL1	Shisa like 1	0.7670	36
DEFB124	Defensin beta 124	0.7510	36
ALDH1A2	Aldehyde dehydrogenase 1 family member A2	0.7499	36
TWIST2	Twist family bHLH transcription factor 2	0.7459	36
HOXA10	Homeobox A10	0.7440	36
AL590132.1	Novel protein	0.7408	36
HAND2	Heart and neural crest derivatives expressed 2	0.7350	36
REV3L	REV3 like, DNA directed polymerase zeta catalytic subunit	0.7211	36
WT1	WT1 transcription factor	0.7208	36

SINGLE CELL TISSUESⁱ Single cell RNA levels of annotated cell type clusters are shown separately for each analyzed tissue. For easier navigation across tissues, use the above Single cell tissue overview, where each tissue name and UMAP plot is clickable and redirects to the selected tissue, alternatively the grey browser on the left side of the window. Barchart shows nTPM levels in each annotated cluster of single cells. To the left, a UMAP plot illustrates the RNA expression profile. The tissue name and plots are clickable and redirect to a more detailed interactive page. Color-coding is based on cell type groups, each consisting of cell types with functional features in common. Please note that the same cell type may be found in several clusters.
Cluster Expression Alphabetical Adipose tissue
Cluster Expression Alphabetical Bone marrow
Cluster Expression Alphabetical Brain
Cluster Expression Alphabetical Breast
Cluster Expression Alphabetical Bronchus
Cluster Expression Alphabetical Colon
Cluster Expression Alphabetical Endometrium
Cluster Expression Alphabetical Esophagus
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Lymph node
Cluster Expression Alphabetical Ovary
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skeletal muscle
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Spleen
Cluster Expression Alphabetical Stomach
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ

Organ

Expression

Alphabetical

Adipocytes	11.8 nTPM
Adipose tissue	16.2 nTPM
Breast	7.4 nTPM

Alveolar cells type 1	3.2 nTPM
Lung	3.2 nTPM

Alveolar cells type 2	2.2 nTPM
Lung	2.2 nTPM

Astrocytes	1.0 nTPM
Brain	1.0 nTPM

B-cells	8.5 nTPM
Liver	50.1 nTPM
Breast	33.4 nTPM
Adipose tissue	1.0 nTPM
Lymph node	0.4 nTPM
Colon	0.0 nTPM
Kidney	0.0 nTPM
PBMC	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Dendritic cells	0.6 nTPM
Breast	1.5 nTPM
Adipose tissue	0.2 nTPM
PBMC	0.0 nTPM

Endothelial cells	38.9 nTPM
Placenta	191.5 nTPM
Lung	159.1 nTPM
Endometrium	82.1 nTPM
Skin	33.3 nTPM
Skeletal muscle	19.9 nTPM
Breast	19.2 nTPM
Esophagus	8.6 nTPM
Eye	8.1 nTPM
Testis	5.7 nTPM
Heart muscle	5.1 nTPM
Pancreas	3.9 nTPM
Ovary	3.9 nTPM
Prostate	3.2 nTPM
Liver	1.8 nTPM

Fibroblasts	259.7 nTPM
Breast	805.6 nTPM
Adipose tissue	571.8 nTPM
Skeletal muscle	513.2 nTPM
Esophagus	284.6 nTPM
Prostate	273.9 nTPM
Stomach	126.2 nTPM
Ovary	115.7 nTPM
Lung	69.2 nTPM
Skin	61.8 nTPM
Placenta	18.8 nTPM
Heart muscle	15.6 nTPM

Intestinal goblet cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Macrophages	42.0 nTPM
Ovary	275.8 nTPM
Esophagus	80.3 nTPM
Endometrium	73.4 nTPM
Adipose tissue	49.8 nTPM
Skeletal muscle	48.6 nTPM
Breast	33.5 nTPM
Prostate	32.0 nTPM
Lung	14.0 nTPM
Pancreas	10.2 nTPM
Testis	4.6 nTPM
Stomach	2.9 nTPM
Kidney	2.3 nTPM
Spleen	2.1 nTPM
PBMC	0.0 nTPM
Bone marrow	0.0 nTPM

Paneth cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Plasma cells	66.9 nTPM
Esophagus	86.2 nTPM
Stomach	75.8 nTPM
Spleen	60.1 nTPM
Adipose tissue	56.1 nTPM
Bone marrow	56.0 nTPM

Respiratory ciliated cells	0.1 nTPM
Bronchus	0.1 nTPM
Lung	0.0 nTPM

Smooth muscle cells	19.6 nTPM
Endometrium	124.5 nTPM
Adipose tissue	53.3 nTPM
Prostate	11.9 nTPM
Skeletal muscle	11.4 nTPM
Skin	3.9 nTPM
Ovary	3.5 nTPM
Esophagus	3.1 nTPM
Breast	3.1 nTPM
Pancreas	0.5 nTPM
Heart muscle	0.1 nTPM
Bronchus	0.0 nTPM

T-cells	9.1 nTPM
Endometrium	85.0 nTPM
Esophagus	26.2 nTPM
Prostate	19.0 nTPM
Skeletal muscle	8.2 nTPM
Skin	5.5 nTPM
Liver	4.0 nTPM
Lung	3.0 nTPM
Breast	1.8 nTPM
Adipose tissue	0.6 nTPM
Stomach	0.6 nTPM
Spleen	0.3 nTPM
PBMC	0.1 nTPM
Colon	0.0 nTPM
Kidney	0.0 nTPM
Ovary	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM

Basal keratinocytes	2.5 nTPM
Skin	2.5 nTPM

Basal prostatic cells	0.7 nTPM
Prostate	0.7 nTPM

Cholangiocytes	2.8 nTPM
Liver	2.8 nTPM

Cytotrophoblasts	1.1 nTPM
Placenta	1.1 nTPM

Undifferentiated cells	0.2 nTPM
Colon	0.5 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Adipose tissue

Bone marrow

Brain

Breast

Bronchus

Colon

Endometrium

Esophagus

Eye

Heart muscle

Kidney

Liver

Lung

Lymph node

Ovary

Pancreas

Placenta

Prostate

Rectum

Skeletal muscle

Skin

Small intestine

Spleen

Stomach

Testis

PBMC